Why is Magento 1.4 including javascript files by filesystem path?

Question

I am in the process of testing a Magento 1.3 site using Magento 1.4. I am seeing very weird and inconsistent behavior. Instead of including the URL of my javascript files, M

Answer 1

in magento 1.4 the config_id is 879 (for me) Setting this value to 0 gave me all my .js files back. Super weird